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The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment

BACKGROUND: Antarctic fish have adapted to the freezing waters of the Southern Ocean. Representative adaptations to this harsh environment include a constitutive heat shock response and the evolution of an antifreeze protein in the blood. Despite their adaptations to the cold, genome-wide studies ha...

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Autores principales: Shin, Seung Chul, Ahn, Do Hwan, Kim, Su Jin, Pyo, Chul Woo, Lee, Hyoungseok, Kim, Mi-Kyeong, Lee, Jungeun, Lee, Jong Eun, Detrich, H William, Postlethwait, John H, Edwards, David, Lee, Sung Gu, Lee, Jun Hyuck, Park, Hyun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4192396/
https://www.ncbi.nlm.nih.gov/pubmed/25252967
http://dx.doi.org/10.1186/s13059-014-0468-1
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author Shin, Seung Chul
Ahn, Do Hwan
Kim, Su Jin
Pyo, Chul Woo
Lee, Hyoungseok
Kim, Mi-Kyeong
Lee, Jungeun
Lee, Jong Eun
Detrich, H William
Postlethwait, John H
Edwards, David
Lee, Sung Gu
Lee, Jun Hyuck
Park, Hyun
author_facet Shin, Seung Chul
Ahn, Do Hwan
Kim, Su Jin
Pyo, Chul Woo
Lee, Hyoungseok
Kim, Mi-Kyeong
Lee, Jungeun
Lee, Jong Eun
Detrich, H William
Postlethwait, John H
Edwards, David
Lee, Sung Gu
Lee, Jun Hyuck
Park, Hyun
author_sort Shin, Seung Chul
collection PubMed
description BACKGROUND: Antarctic fish have adapted to the freezing waters of the Southern Ocean. Representative adaptations to this harsh environment include a constitutive heat shock response and the evolution of an antifreeze protein in the blood. Despite their adaptations to the cold, genome-wide studies have not yet been performed on these fish due to the lack of a sequenced genome. Notothenia coriiceps, the Antarctic bullhead notothen, is an endemic teleost fish with a circumpolar distribution and makes a good model to understand the genomic adaptations to constant sub-zero temperatures. RESULTS: We provide the draft genome sequence and annotation for N. coriiceps. Comparative genome-wide analysis with other fish genomes shows that mitochondrial proteins and hemoglobin evolved rapidly. Transcriptome analysis of thermal stress responses find alternative response mechanisms for evolution strategies in a cold environment. Loss of the phosphorylation-dependent sumoylation motif in heat shock factor 1 suggests that the heat shock response evolved into a simple and rapid phosphorylation-independent regulatory mechanism. Rapidly evolved hemoglobin and the induction of a heat shock response in the blood may support the efficient supply of oxygen to cold-adapted mitochondria. CONCLUSIONS: Our data and analysis suggest that evolutionary strategies in efficient aerobic cellular respiration are controlled by hemoglobin and mitochondrial proteins, which may be important for the adaptation of Antarctic fish to their environment. The use of genome data from the Antarctic endemic fish provides an invaluable resource providing evidence of evolutionary adaptation and can be applied to other studies of Antarctic fish. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13059-014-0468-1) contains supplementary material, which is available to authorized users.
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spelling pubmed-41923962014-10-12 The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment Shin, Seung Chul Ahn, Do Hwan Kim, Su Jin Pyo, Chul Woo Lee, Hyoungseok Kim, Mi-Kyeong Lee, Jungeun Lee, Jong Eun Detrich, H William Postlethwait, John H Edwards, David Lee, Sung Gu Lee, Jun Hyuck Park, Hyun Genome Biol Research BACKGROUND: Antarctic fish have adapted to the freezing waters of the Southern Ocean. Representative adaptations to this harsh environment include a constitutive heat shock response and the evolution of an antifreeze protein in the blood. Despite their adaptations to the cold, genome-wide studies have not yet been performed on these fish due to the lack of a sequenced genome. Notothenia coriiceps, the Antarctic bullhead notothen, is an endemic teleost fish with a circumpolar distribution and makes a good model to understand the genomic adaptations to constant sub-zero temperatures. RESULTS: We provide the draft genome sequence and annotation for N. coriiceps. Comparative genome-wide analysis with other fish genomes shows that mitochondrial proteins and hemoglobin evolved rapidly. Transcriptome analysis of thermal stress responses find alternative response mechanisms for evolution strategies in a cold environment. Loss of the phosphorylation-dependent sumoylation motif in heat shock factor 1 suggests that the heat shock response evolved into a simple and rapid phosphorylation-independent regulatory mechanism. Rapidly evolved hemoglobin and the induction of a heat shock response in the blood may support the efficient supply of oxygen to cold-adapted mitochondria. CONCLUSIONS: Our data and analysis suggest that evolutionary strategies in efficient aerobic cellular respiration are controlled by hemoglobin and mitochondrial proteins, which may be important for the adaptation of Antarctic fish to their environment. The use of genome data from the Antarctic endemic fish provides an invaluable resource providing evidence of evolutionary adaptation and can be applied to other studies of Antarctic fish. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13059-014-0468-1) contains supplementary material, which is available to authorized users. BioMed Central 2014-09-25 2014 /pmc/articles/PMC4192396/ /pubmed/25252967 http://dx.doi.org/10.1186/s13059-014-0468-1 Text en © Shin et al.; licensee BioMed Central Ltd. 2014 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research
Shin, Seung Chul
Ahn, Do Hwan
Kim, Su Jin
Pyo, Chul Woo
Lee, Hyoungseok
Kim, Mi-Kyeong
Lee, Jungeun
Lee, Jong Eun
Detrich, H William
Postlethwait, John H
Edwards, David
Lee, Sung Gu
Lee, Jun Hyuck
Park, Hyun
The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment
title The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment
title_full The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment
title_fullStr The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment
title_full_unstemmed The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment
title_short The genome sequence of the Antarctic bullhead notothen reveals evolutionary adaptations to a cold environment
title_sort genome sequence of the antarctic bullhead notothen reveals evolutionary adaptations to a cold environment
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4192396/
https://www.ncbi.nlm.nih.gov/pubmed/25252967
http://dx.doi.org/10.1186/s13059-014-0468-1
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